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[175308_at] transient receptor protein

Description AV199244_rc /REP_DB=TREMBL Accession /GB=AV199244 /CHR=1 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk543a4 : 3prime end, single read.
Cluster 6grp_highest_10_10 > 97      6grp_high1_10_10 > 78      4grp_highest_8_8 > 30      4grp_high_8_8 > 04      6grp_highest_nonorm > 91      6grp_total > 87      4grp_total > 04      6grp_highest_sub > Cu      6grp_cgc > 39      6grp_high1_sub > Cu      6grp_cgc_sub > Cu      6grp_total_sub > Increase      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 306
1 2 3 4 range
A 253.4
(-0.7)
P 		153.4
(-3)
P 		210.8
(-1.7)
P 		418.5
(3)
P 		265
B 263.2
(-1.4)
P 		229.3
(-2.2)
P 		192.9
(-3)
P 		459.4
(3)
P 		267
C 302
(-1.3)
P 		268.4
(-3)
P 		287.2
(-2.1)
P 		390.2
(3)
P 		122
avr 272.9
(-1.4) 		217
(-3) 		230.3
(-2.6) 		422.7
(3) 		206

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 231
1 2 3 4 5 6 range
A 216.5
(-1)
P 		249.7
(0.7)
P 		178.7
(-3)
P 		202.4
(-1.8)
P 		284.7
(2.5)
P 		293.6
(3)
P 		115
B 244.1
(0.1)
P 		250
(0.3)
P 		124.1
(-3)
P 		287
(1.2)
P 		208.9
(-0.8)
P 		354.6
(3)
P 		231
C 202.1
(-2.2)
P 		179.7
(-3)
P 		233.6
(-1.2)
P 		207.6
(-2)
P 		268
(0)
P 		355
(3)
P 		175
avr 220.9
(-1.4) 		226.5
(-1.2) 		178.8
(-3) 		232.3
(-0.9) 		253.9
(-0.1) 		334.4
(3) 		156
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 67
1 2 3 4 range
A 92.3
(3)
P 		33.3
(-3)
P 		55.1
(-0.8)
P 		61.3
(-0.2)
P 		59
B 83.9
(1.4)
P 		56.6
(-1.7)
P 		44.7
(-3)
P 		97.9
(3)
P 		53
C 100
(3)
P 		77.2
(-1)
P 		100.1
(3)
P 		65.8
(-3)
P 		34
avr 92.1
(3) 		55.7
(-3) 		66.6
(-1.2) 		75
(0.2) 		36

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 102
1 2 3 4 5 6 range
A 39.9
(-2.9)
P 		88.8
(3)
P 		38.9
(-3)
P 		51.3
(-1.5)
P 		85.9
(2.7)
P 		71.5
(0.9)
P 		50
B 84.9
(0.2)
P 		83.2
(0.1)
P 		30.1
(-3)
P 		76
(-0.3)
P 		84.9
(0.2)
P 		132.2
(3)
P 		102
C 74.9
(-0.4)
P 		54.8
(-2)
P 		59.5
(-1.6)
P 		41.8
(-3)
P 		86.7
(0.5)
P 		118.8
(3)
P 		77
avr 66.6
(-0.8) 		75.6
(0) 		42.8
(-3) 		56.4
(-1.7) 		85.8
(1) 		107.5
(3) 		65
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 175308_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.20330
Sequence Type Exemplar sequence
Representative Public ID AV199244 NCBI
Target Description AV199244_rc /REP_DB=TREMBL Accession /GB=AV199244 /CHR=1 /FEA=Genomic Cluster /DEF=Caenorhabditis elegans cDNA clone:yk543a4 : 3prime end, single read.
Cluster Evidence This cluster is supported by a Genomic Cluster.
Annotation Method Description
Annotation Description This probe set was annotated using the Matching Probes based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade A annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_059914(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_059914 NCBI Caenorhabditis elegans abnormal GONad development family member (gon-2) (gon-2) mRNA, complete cds. 11/11 A 
T01H8.5 ENSEMBL cdna:known chromosome:CEL140:I:8557655:8579082:-1 gene:T01H8.5 11/11 A 
Annotation Notes
There are no noteworthy cross hybridizing mRNAs found for this probe set.
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrI:8557647-8557935(-) 100.0 100.0
Public Domain and Genome References
Gene Title transient receptor protein
Gene Symbol gon-2
Ensembl T01H8.5
Entrez Gene 172646 Entrez gene
SwissProt Q93971 EMBL-EBI
WormBase CE30390 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE_2:CFAAFFX.16158.1.S1_AT similar to transient receptor potential cation channel, subfamily M, member 1 cfa
CANINE_2:CFAAFFX.16161.1.S1_S_AT similar to transient receptor potential cation channel, subfamily M, member 1 cfa
CHICKEN:GGAAFFX.2399.1.S1_S_AT similar to transient receptor potential cation channel, subfamily M, member 1; melastatin 1 gga
CHICKEN:GGAAFFX.2399.2.S1_AT similar to transient receptor potential cation channel, subfamily M, member 1; melastatin 1 gga
CHICKEN:GGAAFFX.2399.3.S1_S_AT similar to transient receptor potential cation channel, subfamily M, member 1; melastatin 1 gga
HG-U133_PLUS_2:206479_AT transient receptor potential cation channel, subfamily M, member 1 hs
HG-U133A:206479_AT transient receptor potential cation channel, subfamily M, member 1 hs
HG-U133A_2:206479_AT transient receptor potential cation channel, subfamily M, member 1 hs
HU35KSUBA:AA455860_S_AT transient receptor potential cation channel, subfamily M, member 1 hs
HU35KSUBC:RC_N20535_AT transient receptor potential cation channel, subfamily M, member 1 hs
HU35KSUBC:RC_N21111_AT transient receptor potential cation channel, subfamily M, member 1 hs
HU35KSUBC:RC_AA436463_AT transient receptor potential cation channel, subfamily M, member 1 hs
U133_X3P:G6006023_3P_AT transient receptor potential cation channel, subfamily M, member 1 hs
U133_X3P:HS.166845.0.A1_3P_S_AT transient receptor potential cation channel, subfamily M, member 1 hs
U133_X3P:HS.166845.0.A1_3P_AT transient receptor potential cation channel, subfamily M, member 1 hs
HG-U133_PLUS_2:237069_S_AT transient receptor potential cation channel, subfamily M, member 1 hs
HG-U133B:237069_S_AT transient receptor potential cation channel, subfamily M, member 1 hs
HG-U133_PLUS_2:237070_AT transient receptor potential cation channel, subfamily M, member 1 hs
HG-U133B:237070_AT transient receptor potential cation channel, subfamily M, member 1 hs
HG-U95AV2:41564_AT transient receptor potential cation channel, subfamily M, member 1 hs
HG-U95B:49609_R_AT transient receptor potential cation channel, subfamily M, member 1 hs
HG-U95C:62717_AT transient receptor potential cation channel, subfamily M, member 1 hs
HG-U133_PLUS_2:214410_AT Transient receptor potential cation channel, subfamily M, member 1 hs
HG-U133A_2:214410_AT Transient receptor potential cation channel, subfamily M, member 1 hs
HG-FOCUS:214410_AT Transient receptor potential cation channel, subfamily M, member 1 hs
HG-U133A:214410_AT Transient receptor potential cation channel, subfamily M, member 1 hs
HG-U133_PLUS_2:240386_AT Transient receptor potential cation channel, subfamily M, member 1 hs
HG-U133B:240386_AT Transient receptor potential cation channel, subfamily M, member 1 hs
HG-U133_PLUS_2:243741_AT Transient receptor potential cation channel, subfamily M, member 1 hs
HG-U133B:243741_AT Transient receptor potential cation channel, subfamily M, member 1 hs
HG-U95AV2:41563_AT Transient receptor potential cation channel, subfamily M, member 1 hs
HG-U95B:44502_AT Transient receptor potential cation channel, subfamily M, member 1 hs
HG-U95C:52604_AT Transient receptor potential cation channel, subfamily M, member 1 hs
HG-U95C:66560_AT Transient receptor potential cation channel, subfamily M, member 1 hs
HG-U95D:81181_AT Transient receptor potential cation channel, subfamily M, member 1 hs
HG-U95E:82726_AT Transient receptor potential cation channel, subfamily M, member 1 hs
HG-U95D:87766_AT Transient receptor potential cation channel, subfamily M, member 1 hs
HG-U95D:88401_AT Transient receptor potential cation channel, subfamily M, member 1 hs
HG-U95D:91463_AT Transient receptor potential cation channel, subfamily M, member 1 hs
HU35KSUBA:N28643_AT Transient receptor potential cation channel, subfamily M, member 1 hs
HU35KSUBC:RC_N31576_AT Transient receptor potential cation channel, subfamily M, member 1 hs
HU35KSUBC:RC_AA458649_AT Transient receptor potential cation channel, subfamily M, member 1 hs
HU35KSUBC:RC_H98835_AT Transient receptor potential cation channel, subfamily M, member 1 hs
HU35KSUBC:RC_N23401_AT Transient receptor potential cation channel, subfamily M, member 1 hs
U133_X3P:HS.145268.0.A1_3P_AT Transient receptor potential cation channel, subfamily M, member 1 hs
U133_X3P:HS.40930.0.A1_3P_AT Transient receptor potential cation channel, subfamily M, member 1 hs
U133_X3P:HS.43265.1.A1_3P_AT Transient receptor potential cation channel, subfamily M, member 1 hs
RAT230_2:1375596_AT similar to transient receptor potential cation channel, subfamily M, member 1 rn
RAE230A:1375596_AT similar to transient receptor potential cation channel, subfamily M, member 1 rn
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6811 ion transport inferred from electronic annotation QuickGO AmiGO
6812 cation transport inferred from sequence similarity QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
16020 membrane inferred from electronic annotation QuickGO AmiGO
5886 plasma membrane inferred from sequence similarity QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
5216 ion channel activity inferred from electronic annotation QuickGO AmiGO
8324 cation transporter activity inferred from sequence similarity QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB02303 Hypothetical protein T01H8.5 [Caenorhabditis elegans] emb|CAB05572.2| Hypothetical protein T01H8.5 [Caenorhabditis elegans] ref|NP_492315.4| abnormal GONad development family member (gon-2) [Caenorhabditis elegans] sp|Q93971|TRPG_CAEEL Transient receptor potential channel (Abnormal gonad development protein 2) 0.0
blast CAC81668 putative TRP homologous cation channel [Caenorhabditis elegans] 0.0
blast T23707 hypothetical protein T01H8.5 - Caenorhabditis elegans 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR005821 EMBL-EBI Ion transport protein 3.3E-19
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_492315.4 5 1308-1330,1337-1355,1370-1392,1443-1465,1537-1559
T01H8.5 5 1308-1330,1337-1355,1370-1392,1443-1465,1537-1559
Sequence
Target Sequence 
>C. ELEGANS:175308_AT
caggaccacgggctcttttattagatacattcaccatattcattcatgcctagcttttat
aagttgaatatacagtttattagttttttttctctttccccaaacatttctggctttatt
ttttgtgatttccttccgattcgcagcgggtcaaccccactcacttttccactgaaaaca
tcccccacgaatactttgccttttttcaagacagtttgaatactttttatgaatacccta
tt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CAGGACCACGGGCTCTTTTATTAGA 336 1 22 Antisense
GGCTCTTTTATTAGATACATTCACC 191 539 32 Antisense
ACATTCACCATATTCATTCATGCCT 325 105 48 Antisense
TATTCATTCATGCCTAGCTTTTATA 426 661 58 Antisense
TCATGCCTAGCTTTTATAAGTTGAA 705 621 65 Antisense
TCCCCAAACATTTCTGGCTTTATTT 268 597 118 Antisense
TATTTTTTGTGATTTCCTTCCGATT 557 661 138 Antisense
CCCACTCACTTTTCCACTGAAAACA 243 259 177 Antisense
TCACTTTTCCACTGAAAACATCCCC 460 625 182 Antisense
GAATACTTTGCCTTTTTTCAAGACA 668 325 210 Antisense
GAATACTTTTTATGAATACCCTATT 143 323 239 Antisense
Sequence Source Affymetrix Proprietary Database